Single cell type - UBR5 - The Human Protein Atlas

UBR5

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GENERAL INFORMATIONⁱ General description of the gene and the encoded protein(s) using information from HGNC and Ensembl, as well as predictions made by the Human Protein Atlas project.
Gene nameⁱ Official gene symbol, which is typically a short form of the gene name, according to HGNC.	UBR5
Gene descriptionⁱ Full gene name according to HGNC.	Ubiquitin protein ligase E3 component n-recognin 5
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Cancer-related genes Enzymes Metabolic proteins
Predicted locationⁱ All transcripts of all genes have been analyzed regarding the location(s) of corresponding protein based on prediction methods for signal peptides and transmembrane regions. Genes with at least one transcript predicted to encode a secreted protein, according to prediction methods or to UniProt location data, have been further annotated and classified with the aim to determine if the corresponding protein(s) are secreted or actually retained in intracellular locations or membrane-attached. Remaining genes, with no transcript predicted to encode a secreted protein, will be assigned the prediction-based location(s). The annotated location overrules the predicted location, so that a gene encoding a predicted secreted protein that has been annotated as intracellular will have intracellular as the final location.	Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	7

HUMAN PROTEIN ATLAS INFORMATIONⁱ Summary of RNA expression and protein localization based on data generated within the Human Protein Atlas project.
Single cell type expression clusterⁱ The RNA data was used to cluster genes according to their expression across single cell types. Clusters contain genes that have similar expression patterns, and each cluster has been manually annotated to describe common features in terms of function and specificity.	Non-specific - Transcription (mainly)
Single cell type specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed cell types based on scRNA-seq data from normal tissues. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected.	Cell type enhanced (Astrocytes, Excitatory neurons)
Tau specificity scoreⁱ Tau specificity score is a numerical indicator of the specificity of the gene expression across cells or tissues. The value ranges from 0 and 1, where 0 indicates identical expression across all cells/tissue types, while 1 indicates expression in a single cell/tissue type.	0.33
Brain cluster specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed cell cluster types based on snRNA-seq data from brain samples. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. "cell type" refer to one of the 34 cluster names used to summarize the 2.5 million cells included in the brain cell representation.	Low cell type specificity
Immune cell specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected.	Low immune cell specificity
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); neXtProt protein existence (neXtProt evidence);and a Human Protein Atlas antibody- or RNA based score (HPA evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable.	Evidence at protein level

ASSAYSⁱ

SINGLE CELL TYPESⁱ A summary of normalized single cell RNA (nTPM) from all single cell types. Color-coding is based on cell type groups, each consisting of cell types with functional features in common.
Single cell types RNA single cell type specificity: Cell type enhanced (Astrocytes, Excitatory neurons)

TISSUE CELL TYPEⁱ The tissue cell type section provides a cell type specificity prediction for all protein coding genes. More information on the data available can be found here and a description of the analysis here.
	Core cell typesⁱ The core cell type table displays data for a panel of eight cell types that are found in many tissues. Colored dots indicate that the selected gene has core cell type specificity in the indicated tissue. Grey dots indicate that cell type is present within that tissue, but the selected gene is not predicted to be enriched there. Category Alphabetical Enrichment Tissue specific cell typesⁱ This plot shows the enrichment score of the selected gene in all non-core cell types found within the profiled tissues, allowing comparisons between different cell types within different tissues. An enlarged symbol indicates classification of the gene as cell type enriched in the corresponding cell type.

SINGLE NUCLEI BRAINⁱ

Single nuclei cluster types

RNA brain cluster specificity: Low cell type specificity

IMMUNE CELL TYPE EXPRESSION (RNA)ⁱ Blood cell type expression overview shows RNA-seq data from three different sources: Internally generated Human Protein Atlas (HPA) data, as well as data generated by (Monaco et al) and (Schmiedel et al). Color-coding is based on blood cell type lineages, including B-cells, T-cells, NK-cells, monocytes, granulocytes and dendritic cells as well as total PBMC. To access sample data, click on tissue name or bar.
HPA datasetⁱ The resulting transcript expression values calculated as nTPM, resulting from the internal normalization pipeline for 18 immune cell types and total peripheral blood mononuclear cells (PBMC). Lineage Expression Alphabetical Immune cell type specificity: Low immune cell specificity
Monaco datasetⁱ The transcript expression values (nTPM) resulting from the internal normalization pipeline are visualized for 29 blood cell types and total peripheral blood mononuclear cells (PBMC) from Monaco et al. Lineage Expression Alphabetical
Schmiedel datasetⁱ Transcript Per Million (TPM) values are visualized for 15 blood cell types from the Schmiedel et al. dataset. Lineage Expression Alphabetical

EXPRESSION CLUSTERING & CORRELATIONⁱ

SINGLE CELL TYPE

UBR5 is part of cluster 55 Non-specific - Transcription with confidenceⁱ 0.99
709 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
RBM15	RNA binding motif protein 15	0.5405	55
BTAF1	B-TFIID TATA-box binding protein associated factor 1	0.5353	28
INO80D	INO80 complex subunit D	0.4939	78
CREBBP	CREB binding protein	0.4739	55
WAC	WW domain containing adaptor with coiled-coil	0.4604	55
KDM2A	Lysine demethylase 2A	0.4574	55
MED13	Mediator complex subunit 13	0.4552	55
FBXO11	F-box protein 11	0.4543	29
MED13L	Mediator complex subunit 13L	0.4502	55
RBM26	RNA binding motif protein 26	0.4467	55
DYRK1A	Dual specificity tyrosine phosphorylation regulated kinase 1A	0.4456	55
TAB2	TGF-beta activated kinase 1 (MAP3K7) binding protein 2	0.4420	47
CDH4	Cadherin 4	0.4367	47
KMT2C	Lysine methyltransferase 2C	0.4319	55
CEP128	Centrosomal protein 128	0.4279	61

IMMUNE CELLS

UBR5 is part of cluster 33 Non-specific - ATP binding with confidenceⁱ 0.99
757 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
CAD	Carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase	0.9762	33
IPO7	Importin 7	0.9762	33
ZBED4	Zinc finger BED-type containing 4	0.9762	33
ZBTB43	Zinc finger and BTB domain containing 43	0.9762	33
EEF1AKMT1	EEF1A lysine methyltransferase 1	0.9762	33
ZNF324B	Zinc finger protein 324B	0.9524	33
ABCF1	ATP binding cassette subfamily F member 1	0.9524	33
TCAF1	TRPM8 channel associated factor 1	0.9524	33
ZNF71	Zinc finger protein 71	0.9524	33
WDCP	WD repeat and coiled coil containing	0.9524	33
MCM3AP	Minichromosome maintenance complex component 3 associated protein	0.9524	33
GTF2H2	General transcription factor IIH subunit 2	0.9524	33
VILL	Villin like	0.9524	33
PARP2	Poly(ADP-ribose) polymerase 2	0.9524	33
MRPS14	Mitochondrial ribosomal protein S14	0.9524	33

Adipocytes	51.2 nTPM
Adipose tissue	69.8 nTPM
Breast	32.5 nTPM

Alveolar cells type 1	26.7 nTPM
Lung	26.7 nTPM

Alveolar cells type 2	29.0 nTPM
Lung	29.0 nTPM

B-cells	50.8 nTPM
Esophagus	82.6 nTPM
Salivary gland	65.4 nTPM
Lymph node	63.2 nTPM
Spleen	61.0 nTPM
Skin	55.9 nTPM
Adipose tissue	54.7 nTPM
Thymus	49.8 nTPM
PBMC	47.7 nTPM
Stomach	47.7 nTPM
Bone marrow	45.9 nTPM
Lung	41.6 nTPM
Liver	33.8 nTPM
Kidney	10.4 nTPM

Basal keratinocytes	51.8 nTPM
Skin	63.0 nTPM
Tongue	40.7 nTPM

Ciliated cells	42.7 nTPM
Bronchus	52.8 nTPM
Endometrium	47.6 nTPM
Lung	41.0 nTPM
Fallopian tube	29.5 nTPM

Club cells	36.2 nTPM
Prostate	39.9 nTPM
Bronchus	34.9 nTPM
Lung	33.7 nTPM

Dendritic cells	40.9 nTPM
Adipose tissue	67.3 nTPM
PBMC	14.4 nTPM

Endothelial cells	38.0 nTPM
Salivary gland	63.2 nTPM
Endometrium	55.7 nTPM
Vascular	50.1 nTPM
Skeletal muscle	48.1 nTPM
Thymus	45.2 nTPM
Skin	44.0 nTPM
Tongue	41.8 nTPM
Esophagus	37.5 nTPM
Heart muscle	37.3 nTPM
Testis	36.9 nTPM
Prostate	35.5 nTPM
Fallopian tube	32.5 nTPM
Lung	32.4 nTPM
Ovary	31.2 nTPM
Pancreas	25.9 nTPM
Liver	25.2 nTPM
Breast	23.7 nTPM
Placenta	18.2 nTPM

Enteroendocrine cells	32.7 nTPM
Small intestine	44.6 nTPM
Rectum	30.2 nTPM
Colon	23.2 nTPM

Fibroblasts	38.3 nTPM
Skeletal muscle	59.6 nTPM
Skin	57.3 nTPM
Heart muscle	53.5 nTPM
Salivary gland	49.1 nTPM
Vascular	46.6 nTPM
Stomach	40.3 nTPM
Adipose tissue	37.5 nTPM
Esophagus	37.3 nTPM
Fallopian tube	34.6 nTPM
Thymus	33.5 nTPM
Breast	33.4 nTPM
Prostate	31.7 nTPM
Liver	28.5 nTPM
Placenta	24.9 nTPM
Lung	23.4 nTPM
Pancreas	20.8 nTPM

Granulocytes	40.2 nTPM
Fallopian tube	44.2 nTPM
Lung	42.4 nTPM
Tongue	34.0 nTPM

Intestinal goblet cells	24.8 nTPM
Small intestine	32.2 nTPM
Rectum	22.0 nTPM
Colon	20.2 nTPM

Lymphatic endothelial cells	15.0 nTPM
Fallopian tube	24.6 nTPM
Ovary	5.5 nTPM

Macrophages	45.8 nTPM
Spleen	71.2 nTPM
Skeletal muscle	69.7 nTPM
Tongue	66.7 nTPM
Adipose tissue	64.2 nTPM
Salivary gland	62.1 nTPM
Fallopian tube	60.7 nTPM
Esophagus	48.8 nTPM
Skin	43.5 nTPM
Bone marrow	42.6 nTPM
Vascular	39.4 nTPM
Prostate	39.1 nTPM
Thymus	38.9 nTPM
Lung	38.8 nTPM
Stomach	38.6 nTPM
Endometrium	33.2 nTPM
Testis	32.9 nTPM
Breast	31.9 nTPM
Kidney	26.6 nTPM
Pancreas	20.6 nTPM

Astrocytes	227.6 nTPM
Brain	227.6 nTPM

Bipolar cells	54.9 nTPM
Eye	54.9 nTPM

Cholangiocytes	13.4 nTPM
Liver	13.4 nTPM

Collecting duct cells	33.1 nTPM
Kidney	33.1 nTPM

Paneth cells	18.9 nTPM
Rectum	24.8 nTPM
Colon	21.7 nTPM
Small intestine	10.4 nTPM

Plasma cells	56.9 nTPM
Thymus	74.7 nTPM
Stomach	71.6 nTPM
Spleen	69.8 nTPM
Salivary gland	60.9 nTPM
Bone marrow	60.4 nTPM
Fallopian tube	50.5 nTPM
Esophagus	36.4 nTPM
Liver	31.0 nTPM

Schwann cells	32.8 nTPM
Adipose tissue	53.1 nTPM
Vascular	33.4 nTPM
Esophagus	12.0 nTPM

Serous glandular cells	37.9 nTPM
Salivary gland	44.9 nTPM
Tongue	30.9 nTPM

Smooth muscle cells	40.5 nTPM
Adipose tissue	69.7 nTPM
Skeletal muscle	56.2 nTPM
Endometrium	53.9 nTPM
Salivary gland	53.3 nTPM
Tongue	50.3 nTPM
Vascular	48.3 nTPM
Skin	43.3 nTPM
Lung	37.6 nTPM
Esophagus	36.0 nTPM
Prostate	35.9 nTPM
Thymus	35.2 nTPM
Breast	29.0 nTPM
Fallopian tube	27.6 nTPM
Ovary	27.0 nTPM
Liver	26.3 nTPM
Placenta	18.3 nTPM

Suprabasal keratinocytes	50.2 nTPM
Skin	63.5 nTPM
Tongue	37.0 nTPM

T-cells	47.2 nTPM
Adipose tissue	69.3 nTPM
Esophagus	65.7 nTPM
Skeletal muscle	65.0 nTPM
Tongue	64.6 nTPM
Endometrium	60.5 nTPM
Salivary gland	58.2 nTPM
Lymph node	54.5 nTPM
Vascular	52.7 nTPM
Spleen	48.8 nTPM
Fallopian tube	48.7 nTPM
Thymus	48.6 nTPM
Breast	42.8 nTPM
Lung	42.6 nTPM
Skin	42.4 nTPM
Stomach	41.8 nTPM
Bone marrow	39.2 nTPM
Prostate	39.2 nTPM
PBMC	37.3 nTPM
Colon	30.2 nTPM
Liver	22.7 nTPM
Kidney	16.8 nTPM

Undifferentiated cells	20.5 nTPM
Rectum	22.2 nTPM
Small intestine	21.1 nTPM
Colon	18.1 nTPM

Amygdala excitatory	328.3 nTPM
Hypothalamus	355.8 nTPM
Hippocampus	346.2 nTPM
Cerebral cortex	333.0 nTPM
Amygdala	332.0 nTPM
Thalamus	309.0 nTPM
Basal ganglia	294.1 nTPM

Astrocyte	437.6 nTPM
Amygdala	593.9 nTPM
Hypothalamus	483.4 nTPM
Spinal cord	481.6 nTPM
Basal ganglia	460.5 nTPM
Cerebral cortex	459.0 nTPM
Hippocampus	437.3 nTPM
Midbrain	394.9 nTPM
Thalamus	393.2 nTPM
Pons	376.1 nTPM
Medulla oblongata	371.1 nTPM
Cerebellum	362.7 nTPM

Bergmann glia	478.2 nTPM
Cerebellum	498.3 nTPM
Pons	471.8 nTPM
Medulla oblongata	464.6 nTPM

Central nervous system macrophage	299.7 nTPM
Amygdala	368.1 nTPM
Hypothalamus	363.8 nTPM
Basal ganglia	313.6 nTPM
Spinal cord	303.5 nTPM
Thalamus	289.8 nTPM
Hippocampus	286.2 nTPM
Pons	284.9 nTPM
Midbrain	283.8 nTPM
Cerebellum	275.5 nTPM
Cerebral cortex	265.4 nTPM
Medulla oblongata	262.4 nTPM

Cerebellar inhibitory	285.0 nTPM
Spinal cord	357.5 nTPM
Cerebellum	276.4 nTPM
Medulla oblongata	274.5 nTPM
Midbrain	263.2 nTPM
Pons	253.5 nTPM

Cge interneuron	277.6 nTPM
Hypothalamus	325.7 nTPM
Amygdala	308.0 nTPM
Thalamus	276.8 nTPM
Basal ganglia	266.3 nTPM
Midbrain	264.0 nTPM
Cerebral cortex	258.4 nTPM
Hippocampus	244.3 nTPM

Choroid plexus epithelial cell	513.3 nTPM
Basal ganglia	722.8 nTPM
Medulla oblongata	542.1 nTPM
Thalamus	400.1 nTPM
Hippocampus	388.3 nTPM

Committed oligodendrocyte precursor	219.3 nTPM
Amygdala	259.9 nTPM
Hypothalamus	250.6 nTPM
Thalamus	242.2 nTPM
Medulla oblongata	241.4 nTPM
Cerebral cortex	240.0 nTPM
Hippocampus	229.5 nTPM
Basal ganglia	227.2 nTPM
Spinal cord	198.7 nTPM
Midbrain	189.8 nTPM
Cerebellum	177.6 nTPM
Pons	154.9 nTPM

Deep-layer corticothalamic and 6b	285.8 nTPM
Amygdala	318.2 nTPM
Hippocampus	301.7 nTPM
Hypothalamus	295.0 nTPM
Cerebral cortex	283.4 nTPM
Midbrain	261.8 nTPM
Basal ganglia	254.9 nTPM

Deep-layer intratelencephalic	292.6 nTPM
Hypothalamus	327.2 nTPM
Hippocampus	310.2 nTPM
Amygdala	303.2 nTPM
Cerebral cortex	277.0 nTPM
Basal ganglia	245.5 nTPM

Deep-layer near-projecting	293.6 nTPM
Amygdala	336.2 nTPM
Hypothalamus	321.3 nTPM
Cerebral cortex	292.3 nTPM
Basal ganglia	266.8 nTPM
Hippocampus	251.4 nTPM

Eccentric medium spiny neuron	419.0 nTPM
Thalamus	460.8 nTPM
Amygdala	435.3 nTPM
Basal ganglia	433.5 nTPM
Hypothalamus	405.7 nTPM
Cerebral cortex	396.4 nTPM
Hippocampus	382.2 nTPM